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Sample GSM1215438 Query DataSets for GSM1215438
Status Public on Feb 26, 2014
Title Medulla_oblongata_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Medulla_oblongata
gender: male
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from 25 mg samples of the tissue specimens using the NucleoSpin® Tissue kit (Macherey-Nagel GmbH, Düren, Germany)
Label Cy5 and Cy3
Label protocol According to Illumina protocol
Hybridization protocol According to Illumina protocol
Scan protocol According to Illumina protocol
Data processing The raw data were subject to quality control and normalization using the standard protocols suggested for the bioconductor R package minfi. All probes containing single nucleotide polymorphisms and CpG sites from the X and Y chromosomes were removed from the analysis.
matrix processed value definition: Average Beta
matrix signal intensities value definition: Matrix signal intensities (non-normalized) contains unmethylated (signal A) and methylated (Signal B) signal intensities
Submission date Aug 26, 2013
Last update date Feb 26, 2014
Contact name Kaie Lokk
Organization name University of Tartu
Street address Riia 23
City Tartu
ZIP/Postal code 501010
Country Estonia
Platform ID GPL13534
Series (1)
GSE50192 DNA methylome profiling of human tissues identifies global and tissue-specific methylation patterns

Data table header descriptions
VALUE minfi normalized signal intensity

Data table
cg00000029 0.526595104
cg00000108 0.952963955
cg00000109 0.771513464
cg00000165 0.117113159
cg00000236 0.899784266
cg00000289 0.347321827
cg00000292 0.562148744
cg00000321 0.411935551
cg00000363 0.159135853
cg00000622 0.009931316
cg00000658 0.843190791
cg00000714 0.139343396
cg00000721 0.986753185
cg00000734 0.069767424
cg00000769 0.051389021
cg00000807 0.895044744
cg00000884 0.934929785
cg00000905 0.091778451
cg00000924 0.426910274
cg00000948 0.897029408

Total number of rows: 485577

Table truncated, full table size 10715 Kbytes.

Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

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